Founded in 2001, the Department of Neurobiology at the University of Massachusetts Medical School has evolved into a unique and integrated hub of investigators addressing fundamental problems in neurobiology, from single molecules to behavior, primarily using invertebrate model organisms. Combining cell biological, physiological and behavioral analyses with a critical interventionist angle afforded by cutting-edge genetic approaches, the Department aims to understand the complexity of brain development and function. This collection showcases journal articles and other publications and presentations written by faculty and researchers of the Department of Neurobiology.

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Publications from 2009

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Vascular rhythms and adaptation: do your arteries know what time it is, John F. Keaney Jr. and David R. Weaver

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Deletion of the secretory vesicle proteins IA-2 and IA-2beta disrupts circadian rhythms of cardiovascular and physical activity, Soo Mi Kim, Andrea Power, Steven L. Coon, Cara M. Constance, Takuya Nishimura, Hiroki Hirai, Tao Cai, Christoph Eisner, David R. Weaver, Hugh D. Piggins, David C. Klein, Jurgen Schnermann, and Abner L. Notkins

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Trans-synaptic transmission of vesicular Wnt signals through Evi/Wntless, Ceren Korkut, Bulent Ataman, Preethi Ramachandran, James A. Ashley, Romina Barria, Norberto G. Gherbesi, and Vivian Budnik

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WNTs tune up the neuromuscular junction, Ceren Korkut and Vivian Budnik

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Systems Level Processing of Memory in the Fly Brain: A Dissertation, Michael Jonathan Krashes

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A neural circuit mechanism integrating motivational state with memory expression in Drosophila, Michael Jonathan Krashes, Shamik DasGupta, Andrew Vreede, Benjamin White, J. Douglas Armstrong, and Scott Waddell

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New genetic tools for cell lineage analysis in Drosophila, Tzumin Lee

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Nuclear receptor unfulfilled regulates axonal guidance and cell identity of Drosophila mushroom body neurons, Suewei Lin, Yaling Huang, and Tzumin Lee

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Antennal circadian clocks coordinate sun compass orientation in migratory monarch butterflies, Christine Merlin, Robert J. Gegear, and Steven M. Reppert

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Neuronal death or dismemberment mediated by Sox14, Jeannette M. Osterloh and Marc R. Freeman

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A Tyramine-Gated Chloride Channel Coordinates Distinct Motor Programs of a Caenorhabditis elegans Escape Response, Jennifer K. Pirri, Adam D. McPherson, Jamie L. Donnelly, Michael M. Francis, and Mark J. Alkema

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There are many ways to train a fly, Jena L. Pitman, Shamik DasGupta, Michael J. Krashes, Benjamin Leung, Paola N. Perrat, and Scott Waddell

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Sleep: what goes up must come down, Jena L. Pitman and Scott Waddell

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Cytoskeletal Regulation and Morphogen Signaling During Synaptic Outgrowth at the Drosophila Larval Neuromuscular Junction : A Dissertation, Preethi Ramachandran

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A critical step for postsynaptic F-actin organization: regulation of Baz/Par-3 localization by aPKC and PTEN, Preethi Ramachandran, Romina Barria, James A. Ashley, and Vivian Budnik

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Cotranslational and posttranslational N-glycosylation of polypeptides by distinct mammalian OST isoforms, Catalina Ruiz-Canada, Daniel J. Kelleher, and Reid Gilmore

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A comparative study of Drosophila and human A-type lamins, Sandra R. Schulze, Beatrice Curio-Penny, Sean D. Speese, George Dialynas, Diane E. Cryderman, Caitrin W. McDonough, Demet Nalbant, Melissa Petersen, Vivian Budnik, Pamela K. Geyer, and Lori L. Wallrath

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The Circadian Clock in Monarch Butterfly: A Tale of Two CRYs: A Dissertation, Quan Yuan

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Twin-spot MARCM to reveal the developmental origin and identity of neurons, Hung-Hsiang Yu, Chun-Hong Chen, Lei Shi, Yaling Huang, and Tzumin Lee

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Endodomain diversity in the Drosophila Dscam and its roles in neuronal morphogenesis, Hung-Hsiang Yu, Jacob S. Yang, Jian Wang, Yaling Huang, and Tzumin Lee

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Defining behavioral and molecular differences between summer and migratory monarch butterflies, Haisun Zhu, Robert J. Gegear, Amy L. Casselman, Sriramana Kanginakudru, and Steven M. Reppert

Publications from 2008

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The Molecular Mechanisms of Activity-Dependent Wingless (Wg)/Wnt Signaling at a Drosophila Glutamatergic Synapse: a Dissertation, Bulent Ataman

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Rapid activity-dependent modifications in synaptic structure and function require bidirectional Wnt signaling, Bulent Ataman, James A. Ashley, Michael Gorczyca, Preethi Ramachandran, Wernher Fouquet, Stephan J. Sigrist, and Vivian Budnik

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Organization and postembryonic development of glial cells in the adult central brain of Drosophila, Takeshi Awasaki, Sen-Lin Lai, Kei Ito, and Tzumin Lee

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RNA interference screening in Drosophila primary cells for genes involved in muscle assembly and maintenance, Jianwu Bai, Richard Binari, Jian-Quan Ni, Marina Vijayakanthan, Hong-Sheng Li, and Norbert Perrimon

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hVAPB, the causative gene of a heterogeneous group of motor neuron diseases in humans, is functionally interchangeable with its Drosophila homologue DVAP-33A at the neuromuscular junction, Andrea Chai, James Withers, Young Ho Koh, Katherine Parry, Hong Bao, Bing Zhang, Vivian Budnik, and Giuseppa Pennetta

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Learned odor discrimination in Drosophila without combinatorial odor maps in the antennal lobe, Shamik DasGupta and Scott Waddell

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A plastic clock: how circadian rhythms respond to environmental cues in Drosophila, Raphaelle Dubruille and Patrick Emery

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Circadian rhythms: timing the sense of smell, Patrick Emery and Michael M. Francis

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Cryptochrome mediates light-dependent magnetosensitivity in Drosophila, Robert J. Gegear, Amy L. Casselman, Scott Waddell, and Steven M. Reppert

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Genetic evidence from Indian red jungle fowl corroborates multiple domestication of modern day chicken, Sriramana Kanginakudru, Muralidhar Metta, R. D. Jakati, and J. Nagaraju

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Drosophila memory: will Orb(2) predict the future, Michael Jonathan Krashes and Scott Waddell

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Rapid consolidation to a radish and protein synthesis-dependent long-term memory after single-session appetitive olfactory conditioning in Drosophila, Michael Jonathan Krashes and Scott Waddell

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Clonal analysis of Drosophila antennal lobe neurons: diverse neuronal architectures in the lateral neuroblast lineage, Sen-Lin Lai, Takeshi Awasaki, Kei Ito, and Tzumin Lee

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Unique Asn-linked oligosaccharides of the human pathogen Entamoeba histolytica, Paula Magnelli, John F. Cipollo, Daniel M. Ratner, Jike Cui, Daniel J. Kelleher, Reid Gilmore, Catherine E. Costello, Phillips W. Robbins, and John Samuelson

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DLGS97/SAP97 is developmentally upregulated and is required for complex adult behaviors and synapse morphology and function, Carolina Mendoza-Topaz, Francisco Urra, Romina Barria, Valeria Albornoz, Diego Ugalde, Ulrich Thomas, Eckart Gundelfinger, Ricardo Delgado, Manuel Kukuljan, Parthena D. Sanxaridis, Susan Tsunoda, M. Fernanda Ceriani, Vivian Budnik, and Jimena Sierralta

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Mutation of a TADR protein leads to rhodopsin and Gq-dependent retinal degeneration in Drosophila, Lina Ni, Peiyi Guo, Keith Reddig, Mirna Mitra, and Hong-Sheng Li

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Loss of responsiveness to melatonin in the aging mouse suprachiasmatic nucleus, Charlotte von Gall and David R. Weaver

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Evolutionary conserved role for TARPs in the gating of glutamate receptors and tuning of synaptic function, Rui Wang, Craig S. Walker, Penelope Brockie, Michael M. Francis, Jerry E. Mellem, David M. Madsen, and Andres V. Maricq

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Ethanol Sensitivity and Tolerance of Rat Neuronal BK Channels: A Dissertation, Patricia M. Wynne

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Dynein-dynactin complex is essential for dendritic restriction of TM1-containing Drosophila Dscam, Jacob S. Yang, Jia-Min Bai, and Tzumin Lee

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The Molecular Mechanisms Underlying the Polarized Distribution of Drosophila Dscam in Neurons: A Dissertation, Shun-Jen Yang

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Rhythmic expression of clock genes in the ependymal cell layer of the third ventricle of rodents is independent of melatonin signaling, Shinobu Yasuo, Charlotte von Gall, David R. Weaver, and Horst-Werner Korf

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Chasing migration genes: a brain expressed sequence tag resource for summer and migratory monarch butterflies (Danaus plexippus), Haisun Zhu, Amy L. Casselman, and Steven M. Reppert

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Cryptochromes define a novel circadian clock mechanism in monarch butterflies that may underlie sun compass navigation, Haisun Zhu, Ivo Sauman, Quan Yuan, Amy L. Casselman, Myai Emery-Le, Patrick Emery, and Steven M. Reppert

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Draper-dependent glial phagocytic activity is mediated by Src and Syk family kinase signalling, Jennifer S. Ziegenfuss, Romi Biswas, Michelle A. Avery, Kyoungja Hong, Amy E. Sheehan, Yee-Guide Yeung, E. Richard Stanley, and Marc R. Freeman

Publications from 2007

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Transient, light-induced rhythmicity in mPer-deficient mice, Kiho Bae and David R. Weaver

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The evolution of N-glycan-dependent endoplasmic reticulum quality control factors for glycoprotein folding and degradation, Sulagna Banerjee, Prashanth Vishwanath, Jike Cui, Daniel J. Kelleher, Reid Gilmore, Phillips W. Robbins, and John Samuelson

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Molecular and Behavioral Analysis of Drosophila Circadian Photoreception and Circadian Thermoreception: A Dissertation, Ania Busza

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Interactions between circadian neurons control temperature synchronization of Drosophila behavior, Ania Busza, Alejandro D. Murad, and Patrick Emery

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CLOCK and NPAS2 have overlapping roles in the suprachiasmatic circadian clock, Jason P. DeBruyne, David R. Weaver, and Steven M. Reppert

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Peripheral circadian oscillators require CLOCK, Jason P. DeBruyne, David R. Weaver, and Steven M. Reppert

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Mutagenesis with Drosophila, Patrick Emery

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Protein extraction from Drosophila heads, Patrick Emery

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RNA extraction from Drosophila heads, Patrick Emery

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RNase protection assay, Patrick Emery

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Glia got rhythm, Patrick Emery and Marc R. Freeman

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A look inside, Marc R. Freeman

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A potential dimerization region of dCAMTA is critical for termination of fly visual response, Ping Gong, Junhai Han, Keith Reddig, and Hong-Sheng Li

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Postsynaptic membrane addition depends on the Discs-Large-interacting t-SNARE Gtaxin, David Gorczyca, James A. Ashley, Sean Speese, Norberto G. Gherbesi, Ulrich Thomas, Eckart Gundelfinger, L. Sian Gramates, and Vivian Budnik

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Prolonged G(q) activity triggers fly rhodopsin endocytosis and degradation, and reduces photoreceptor sensitivity, Junhai Han, Keith Reddig, and Hong-Sheng Li

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Drosophila olfactory memory: single genes to complex neural circuits, Alex Carl Keene and Scott Waddell

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Sequential use of mushroom body neuron subsets during drosophila odor memory processing, Michael Jonathan Krashes, Alex Carl Keene, Benjamin M. Leung, J. Douglas Armstrong, and Scott Waddell

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Neural Diversity in the Drosophila Olfactory Circuitry: A Dissertation, Sen-Lin Lai

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Identification of novel regulatory factor X (RFX) target genes by comparative genomics in Drosophila species, Anne Laurencon, Raphaelle Dubruille, Evgeni Efimenko, Guillaume Grenier, Ryan Bissett, Elisabeth Cortier, Vivien Rolland, Peter Swoboda, and Benedicte Durand

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Smelling excitement in the antennal lobe, Benjamin M. Leung and Scott Waddell

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Crucial role of Drosophila neurexin in proper active zone apposition to postsynaptic densities, synaptic growth, and synaptic transmission, Jingjun Li, James A. Ashley, Vivian Budnik, and Manzoor A. Bhat

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The scoop on the fly brain: glial engulfment functions in Drosophila, Mary A. Logan and Marc R. Freeman

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Molecular and Neuronal Analysis of Circadian Photoresponses in Drosophila: A Dissertation, Alejandro D. Murad

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A subset of dorsal neurons modulates circadian behavior and light responses in Drosophila, Alejandro D. Murad, Myai Emery-Le, and Patrick Emery

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The Drosophila homolog of MCPH1, a human microcephaly gene, is required for genomic stability in the early embryo, Jamie L. Rickmyre, Shamik DasGupta, Danny Liang-Yee Ooi, Jessica Keel, Ethan Lee, Marc W. Kirschner, Scott Waddell, and Laura A. Lee

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Roles of Drosophila Kruppel-homolog 1 in neuronal morphogenesis, Lei Shi, Suewei Lin, Yelena Grinberg, Yannick Beck, Christina M. Grozinger, Gene E. Robinson, and Tzumin Lee

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Specific Drosophila Dscam juxtamembrane variants control dendritic elaboration and axonal arborization, Lei Shi, Hung-Hsiang Yu, Jacob S. Yang, and Tzumin Lee

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Drosophila sensory neurons require Dscam for dendritic self-avoidance and proper dendritic field organization, Peter Soba, Sijun Zhu, Kazuo Emoto, Susan Younger, Shun-Jen Yang, Hung-Hsiang Yu, Tzumin Lee, Lily Yeh Jan, and Yuh-Nung Jan

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Formation and function of flavin anion radical in cryptochrome 1 blue-light photoreceptor of monarch butterfly, Sang-Hun Song, Nuri Ozturk, Tracy R. Denaro, N. Ozlem Arat, Ya-Ting Kao, Haisun Zhu, Dongping Zhong, Steven M. Reppert, and Aziz Sancar

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Wnts: up-and-coming at the synapse, Sean D. Speese and Vivian Budnik

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Insect cryptochromes: gene duplication and loss define diverse ways to construct insect circadian clocks, Quan Yuan, Danielle Metterville, Adriana D. Briscoe, and Steven M. Reppert

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Neuronal temporal identity in post-embryonic Drosophila brain, Hung-Hsiang Yu and Tzumin Lee

Publications from 2006

The Role of Cell Adhesion, the Cytoskeleton, and Membrane Trafficking during Synapse Outgrowth: A Dissertation, James A. Ashley

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Nuclear trafficking of Drosophila Frizzled-2 during synapse development requires the PDZ protein dGRIP, Bulent Ataman, James A. Ashley, David Gorczyca, Michael Gorczyca, Dennis Mathew, Carolin Wichmann, Stephan J. Sigrist, and Vivian Budnik

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Scaffolding proteins at the Drosophila neuromuscular junction, Bulent Ataman, Vivian Budnik, and Ulrich Thomas

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Selected methods for the anatomical study of Drosophila embryonic and larval neuromuscular junctions, Vivian Budnik, Michael Gorczyca, and Andreas Prokop

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The Fly Neuromuscular Junction: Structure and Function, Vivian Budnik and Catalina Ruiz-Canada

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A clock shock: mouse CLOCK is not required for circadian oscillator function, Jason P. DeBruyne, Elizabeth Noton, Christopher M. Lambert, Elizabeth S. Maywood, David R. Weaver, and Steven M. Reppert

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The polycomb group protein EZH2 is required for mammalian circadian clock function, Jean-Pierre Etchegaray, Xiaoming Yang, Jason P. DeBruyne, Antoine H.F.M. Peters, David R. Weaver, Thomas Jenuwein, and Steven M. Reppert

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The Drosophila radish gene encodes a protein required for anesthesia-resistant memory, Elisabeth Folkers, Scott Waddell, and William G. Quinn

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Sculpting the nervous system: glial control of neuronal development, Marc R. Freeman

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Glial cell biology in Drosophila and vertebrates, Marc R. Freeman and Johnna E. Doherty

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Plasticity and second messengers during synapse development, Leslie C. Griffith and Vivian Budnik

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The fly CAMTA transcription factor potentiates deactivation of rhodopsin, a G protein-coupled light receptor, Junhai Han, Ping Gong, Keith Reddig, Mirna Mitra, Peiyi Guo, and Hong-Sheng Li

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Genetic Dissection of the Neural Circuitry Underlying Memory Stability in Drosophila: A Dissertation, Alex Carl Keene

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Drosophila dorsal paired medial neurons provide a general mechanism for memory consolidation, Alex Carl Keene, Michael Jonathan Krashes, Benjamin M. Leung, Jessica A. Bernard, and Scott Waddell

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Cbf beta-SMMHC induces distinct abnormal myeloid progenitors able to develop acute myeloid leukemia, Ya-Huei Kuo, Sean F. Landrette, Susan Ann Heilman, Paola N. Perrat, Lisa Garrett, Pu P. Liu, Michelle M. Le Beau, Scott C. Kogan, and Lucio H. Castilla

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Genetic mosaic with dual binary transcriptional systems in Drosophila, Sen-Lin Lai and Tzumin Lee

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Peripheral gene expression rhythms in a diurnal rodent, Christopher M. Lambert and David R. Weaver

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The Drosophila cell corpse engulfment receptor Draper mediates glial clearance of severed axons, Jennifer MacDonald, Margaret Beach, Ermelinda Porpiglia, Amy E. Sheehan, Ryan J. Watts, and Marc R. Freeman

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A colorful model of the circadian clock, Steven M. Reppert

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Introduction on the use of the Drosophila embryonic/larval neuromuscular junction as a model system to study synapse development and function, and a brief summary of pathfinding and target recognition, Catalina Ruiz-Canada and Vivian Budnik

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Synaptic cytoskeleton at the neuromuscular junction, Catalina Ruiz-Canada and Vivian Budnik

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Ectopic CRYPTOCHROME renders TIM light sensitive in the Drosophila ovary, Brandy L. Rush, Alejandro D. Murad, Patrick Emery, and Jadwiga M. Giebultowicz